Hi Mrtrix Experts,
I am trying to build Mrtrix on my Mac and everything was going fine until I tried ./configure while in MRTRIX3 folder. Something is wrong with my QT application even though installation via MacPort seemed okay.
Here are my commands in .bash_profile:
export PATH=/Users/ElijahMak/Documents/MATLAB_R2011a.app/bin:$PATH
export PATH=/Users/ElijahMak/QT/5.7/clang_64/bin:$PATH
export EIGEN_CFLAGS="-isystem /Users/ElijahMak/Documents/eigen/"
# MacPorts Installer addition on 2016-07-25_at_07:22:30: adding an appropriate PATH variable for use with MacPorts.
export PATH="/opt/local/bin:/opt/local/sbin:$PATH"
# Finished adapting your PATH environment variable for use with MacPorts.
PATH=/Users/ElijahMak/mrtrix3/release/bin:/Users/ElijahMak/mrtrix3/scripts:$PATH
And here are details for the configure log file. Any help will be greatly appreciated! 
REPORT:
MRtrix build type requested:
REPORT: release
REPORT:
REPORT: Detecting OS: darwin
EXEC <<
CMD: sw_vers -productVersion
EXIT: 0
STDOUT:
10.11.2
>>
REPORT: OS X deployment target: 10.11
REPORT: Checking for C++11 compliant compiler [clang++]:
EXEC <<
CMD: clang++ -dumpversion
EXIT: 0
STDOUT:
4.2.1
>>
REPORT: 4.2.1
COMPILE /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmpizet7_ng.cpp:
---
struct Base {
Base (int);
};
struct Derived : Base {
using Base::Base;
};
int main() {
Derived D (int); // check for contructor inheritance
return (0);
}
---
EXEC <<
CMD: clang++ -c -std=c++11 -DMRTRIX_MACOSX -fPIC -mmacosx-version-min=10.11 /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmpizet7_ng.cpp -o /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmpizet7_ng.o
EXIT: 0
>>
EXEC <<
CMD: clang++ /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmpizet7_ng.o -mmacosx-version-min=10.11 -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
>>
REPORT: - tested ok
REPORT: Detecting pointer size:
COMPILE /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmp45c1c6o8.cpp:
---
#include <iostream>
int main() {
std::cout << sizeof(void*);
return (0);
}
---
EXEC <<
CMD: clang++ -c -std=c++11 -DMRTRIX_MACOSX -fPIC -mmacosx-version-min=10.11 /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmp45c1c6o8.cpp -o /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmp45c1c6o8.o
EXIT: 0
>>
EXEC <<
CMD: clang++ /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmp45c1c6o8.o -mmacosx-version-min=10.11 -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
8
>>
REPORT: 64 bit
REPORT: Detecting byte order:
REPORT: little-endian
REPORT: Checking for variable-length array support:
COMPILE /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmpem91xi49.cpp:
---
int main(int argc, char* argv[]) {
int x[argc];
return 0;
}
---
EXEC <<
CMD: clang++ -c -std=c++11 -DMRTRIX_MACOSX -fPIC -mmacosx-version-min=10.11 -DMRTRIX_WORD64 /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmpem91xi49.cpp -o /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmpem91xi49.o
EXIT: 0
>>
EXEC <<
CMD: clang++ /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmpem91xi49.o -mmacosx-version-min=10.11 -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
>>
REPORT: yes
REPORT: Checking for non-POD variable-length array support:
COMPILE /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmp7f703o_e.cpp:
---
#include <string>
class X {
int x;
double y;
std::string s;
};
int main(int argc, char* argv[]) {
X x[argc];
return 0;
}
---
EXEC <<
CMD: clang++ -c -std=c++11 -DMRTRIX_MACOSX -fPIC -mmacosx-version-min=10.11 -DMRTRIX_WORD64 /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmp7f703o_e.cpp -o /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmp7f703o_e.o
EXIT: 1
STDERR:
/var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmp7f703o_e.cpp:11:6: error: variable length array of non-POD element type 'X'
X x[argc];
^
1 error generated.
>>
error deleting temporary file "/var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmp7f703o_e.o": No such file or directory
REPORT: no
REPORT: Checking for zlib compression library:
COMPILE /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmps6z3pwur.cpp:
---
#include <iostream>
#include <zlib.h>
int main() {
std::cout << zlibVersion();
return (0);
}
---
EXEC <<
CMD: clang++ -c -std=c++11 -DMRTRIX_MACOSX -fPIC -mmacosx-version-min=10.11 -DMRTRIX_WORD64 -DMRTRIX_NO_NON_POD_VLA /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmps6z3pwur.cpp -o /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmps6z3pwur.o
EXIT: 0
>>
EXEC <<
CMD: clang++ /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmps6z3pwur.o -mmacosx-version-min=10.11 -lz -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
1.2.5
>>
REPORT: 1.2.5
REPORT: Checking for Eigen 3 library:
COMPILE /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmp5id1qdhx.cpp:
---
#include <Eigen/Core>
#include <iostream>
int main (int argc, char* argv[]) {
std::cout << EIGEN_WORLD_VERSION << "." << EIGEN_MAJOR_VERSION << "." << EIGEN_MINOR_VERSION << "\n";
return 0;
}
---
EXEC <<
CMD: clang++ -c -std=c++11 -DMRTRIX_MACOSX -fPIC -mmacosx-version-min=10.11 -DMRTRIX_WORD64 -DMRTRIX_NO_NON_POD_VLA -isystem /Users/ElijahMak/Documents/eigen/ /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmp5id1qdhx.cpp -o /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmp5id1qdhx.o
EXIT: 0
>>
EXEC <<
CMD: clang++ /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmp5id1qdhx.o -mmacosx-version-min=10.11 -lz -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
3.2.9
>>
REPORT: 3.2.9
REPORT: Checking shared library generation:
EXEC <<
CMD: clang++ -c -std=c++11 -DMRTRIX_MACOSX -fPIC -mmacosx-version-min=10.11 -DMRTRIX_WORD64 -DMRTRIX_NO_NON_POD_VLA -isystem /Users/ElijahMak/Documents/eigen/ /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmp_0h0jyoy.cpp -o /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmp_0h0jyoy.o
EXIT: 0
>>
EXEC <<
CMD: clang++ /var/folders/qh/307k72vx5zz54nfngsbzc5lm0000gn/T/tmp_0h0jyoy.o -dynamiclib -install_name @rpath/LIBNAME -mmacosx-version-min=10.11 -mmacosx-version-min=10.11 -lz -o libtest.dylib
EXIT: 0
>>
REPORT: yes
REPORT: Checking for Qt moc:
EXEC <<
CMD: moc -v
EXIT: 1
STDERR:
Qt Meta Object Compiler version 63 (Qt 4.8.7)
>>
REPORT: moc (version 4.8.7)
REPORT: Checking for Qt qmake:
EXEC <<
CMD: qmake -v
EXIT: 0
STDOUT:
QMake version 2.01a
Using Qt version 4.8.7 in /Users/ElijahMak/anaconda/lib
>>
REPORT: qmake (version 4.8.7)
REPORT: Checking for Qt rcc:
EXEC <<
CMD: rcc -v
EXIT: 1
STDERR:
Qt Resource Compiler version 4.8.7
>>
REPORT: rcc (version 4.8.7)
REPORT: Checking for Qt:
source file "qt.h":
---
#include <QObject>
class Foo: public QObject {
Q_OBJECT;
public:
Foo();
~Foo();
public slots:
void setValue(int value);
signals:
void valueChanged (int newValue);
private:
int value_;
};
---
source file "qt.cpp":
---
#include <iostream>
#include "qt.h"
Foo::Foo() : value_ (42) { connect (this, SIGNAL(valueChanged(int)), this, SLOT(setValue(int))); }
Foo::~Foo() { std::cout << qVersion() << "\n"; }
void Foo::setValue (int value) { value_ = value; }
int main() { Foo f; }
---
project file "qt.pro":
---
CONFIG += c++11
QT += core gui opengl svg
HEADERS += qt.h
SOURCES += qt.cpp
QMAKE_MACOSX_DEPLOYMENT_TARGET = 10.11
---
EXEC <<
CMD: qmake
EXIT: 0
>>
EXEC <<
CMD: moc qt.h -o qt_moc.cpp
EXIT: 0
>>
EXEC <<
CMD: clang++ -c -std=c++11 -DMRTRIX_MACOSX -fPIC -mmacosx-version-min=10.11 -DMRTRIX_WORD64 -DMRTRIX_NO_NON_POD_VLA -isystem /Users/ElijahMak/Documents/eigen/ -pipe -O2 -arch x86_64 -Xarch_x86_64 -mmacosx-version-min=10.5 -Wall -W -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_OPENGL_LIB -DQT_GUI_LIB -DQT_CORE_LIB -DQT_SHARED -isystem /Users/ElijahMak/anaconda/mkspecs/macx-g++ -isystem /Users/ElijahMak/anaconda/include/QtCore -isystem /Users/ElijahMak/anaconda/include/QtGui -isystem /Users/ElijahMak/anaconda/include/QtOpenGL -isystem /Users/ElijahMak/anaconda/include/QtSvg -isystem /Users/ElijahMak/anaconda/include -isystem /System/Library/Frameworks/OpenGL.framework/Headers -isystem /System/Library/Frameworks/AGL.framework/Headers/ qt.cpp -o qt.o
EXIT: 1
STDERR:
In file included from qt.cpp:2:
In file included from ./qt.h:1:
In file included from /Users/ElijahMak/anaconda/include/QtCore/QObject:1:
In file included from /Users/ElijahMak/anaconda/include/QtCore/qobject.h:50:
/Users/ElijahMak/anaconda/include/QtCore/qlist.h:55:10: fatal error: 'initializer_list' file not found
#include <initializer_list>
^
1 error generated.
>>
ERROR: error compiling Qt application!
See the file 'configure.log' for details. If this doesn't help and you need
further assistance, please post on the MRtrix3 community forum
(http://community.mrtrix.org/), and make sure to include the full contents of
the 'configure.log' file.